Python toolkit for fast genotype I/O, ancestry analysis, population-genetics statistics, genotype QC, GWAS, and visualization

Query sequence data (VCF/BCF1/BCF2, Tabix, BGEN, PLINK) in R

Light and fast pure python parser for bgen format (v.1.1; 1.2; 1.3)

R package for the format conversion from bgen to gds

BGEN file format reader for parsing UK Biobank and other genotype data in Go

Reference implementation of the bgen format. Adapted for maintainability from https://github.com/gavinband/bgen